Nextflow workflow report

[extravagant_ampere]

Workflow execution completed unsuccessfully!

The exit status of the task that caused the workflow execution to fail was: null.

The full error message was:

Error executing process > 'NFCORE_SEQINSPECTOR:SEQINSPECTOR:FASTQSCREEN_FASTQSCREEN (SAMPLE_PAIRED_END_2_2)'

Caused by:
  Process requirement exceeds available memory -- req: 36 GB; avail: 16 GB


Command executed:

  echo 'DATABASE Ecoli ./ref1/genome bowtie2
  DATABASE PhiX ./ref2/genome bowtie2
  DATABASE Scerevisiae ./ref3/genome bowtie2' > fastq_screen.conf
  
      fastq_screen \
          --conf fastq_screen.conf \
          --threads 6 \
          Bpacificus-ATCC10987-rep2-sWGS-MiSeqi100-241111_S2_L001_R1_001.fastq.gz Bpacificus-ATCC10987-rep2-sWGS-MiSeqi100-241111_S2_L001_R2_001.fastq.gz \
          
  
      mv Bpacificus-ATCC10987-rep2-sWGS-MiSeqi100-241111_S2_L001_R1_001_screen.txt SAMPLE_PAIRED_END_2_2_1_screen.txt && mv Bpacificus-ATCC10987-rep2-sWGS-MiSeqi100-241111_S2_L001_R2_001_screen.txt SAMPLE_PAIRED_END_2_2_2_screen.txt && mv Bpacificus-ATCC10987-rep2-sWGS-MiSeqi100-241111_S2_L001_R1_001_screen.html SAMPLE_PAIRED_END_2_2_1_screen.html && mv Bpacificus-ATCC10987-rep2-sWGS-MiSeqi100-241111_S2_L001_R2_001_screen.html SAMPLE_PAIRED_END_2_2_2_screen.html && mv Bpacificus-ATCC10987-rep2-sWGS-MiSeqi100-241111_S2_L001_R1_001_screen.png SAMPLE_PAIRED_END_2_2_1_screen.png && mv Bpacificus-ATCC10987-rep2-sWGS-MiSeqi100-241111_S2_L001_R2_001_screen.png SAMPLE_PAIRED_END_2_2_2_screen.png
  
      fastq_screen_version=$(fastq_screen --version 2>&1 | sed 's/^.*FastQ Screen v//; s/ .*$//')
      echo "\"NFCORE_SEQINSPECTOR:SEQINSPECTOR:FASTQSCREEN_FASTQSCREEN\":" > versions.yml
      echo "    fastqscreen: $fastq_screen_version" >> versions.yml

Command exit status:
  -

Command output:
  (empty)

Work dir:
  /Users/agrimabhatt/seqinspector/work/16/562b5d38f7e2862847b1b0138459af

Container:
  community.wave.seqera.io/library/fastq-screen_perl-gdgraph:5c1786a5d5bc1309

Tip: when you have fixed the problem you can continue the execution adding the option `-resume` to the run command line
Run times
14-Oct-2025 13:13:07 - 14-Oct-2025 13:13:37 (duration: 30s)
  2 succeeded  
  0 cached  
  0 ignored  
  1 failed (0 retries)  
Nextflow command
nextflow run main.nf -profile test,docker --input /Users/agrimabhatt/pipeline/testdata/testdata/Miseq_PairedEnd/samplesheet.csv --outdir result -with-report
CPU-Hours
(a few seconds)
Launch directory
/Users/agrimabhatt/seqinspector
Work directory
/Users/agrimabhatt/seqinspector/work
Project directory
/Users/agrimabhatt/seqinspector
Script name
main.nf
Script ID
51ae67c7a1786a7937e7c520871990bd
Workflow session
462240f0-2af4-4b1d-bf70-8d66d85a800f
Workflow profile
test,docker
Nextflow version
version 25.04.7, build 5955 (08-09-2025 13:29 UTC)

Resource Usage

These plots give an overview of the distribution of resource usage for each process.

CPU

Memory

Job Duration

I/O

Tasks

This table shows information about each task in the workflow. Use the search box on the right to filter rows for specific values. Clicking headers will sort the table by that value and scrolling side to side will reveal more columns.

(tasks table omitted because the dataset is too big)